|
| Status |
Public on Apr 26, 2019 |
| Title |
LN521-221_3 |
| Sample type |
SRA |
| |
|
| Source name |
H1 from WiCell International
|
| Organism |
Homo sapiens |
| Characteristics |
cellline: H1
biological replicate: 3
treatment: LN521+LN221
|
| Treatment protocol |
Nutristem medium was changed daily for 4 days.
|
| Growth protocol |
Cells were cultured in triplicates wells coated with LN-521 or LN-521+LN-221 in nutristem medium for 4 days.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated with Norgen Biotek's Single-cell RNA-isolation kit according to manufacturer's protocol. 700 ng of total RNA was used for library construction.
Libraries were constructed with TruSeq stranded total RNA library Prep Kit (Illumina).
Samples were multiplexed with 10 samples per lane and sequenced in Illumina HiSeq 3000 RNA sequencing platform (150bp pair-end reads)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 3000 |
| |
|
| Description |
Human embryonic stem cells were cultured in wells coated with LN-521 or LN-521+LN-221 using nutristem medium.
|
| Data processing |
All reads were assessed for quality and (when necessary) adaptors were removed using Cutadapt.
RNA-Seq reads were aligned to hg38 (Ensembl Gene annotation build 79) using STAR 2.5.2b
Reads were quantified using RSEM 1.2.31
Genome_build: hg38 (Ensembl Gene annotation build 79)
Supplementary_files_format_and_content: LN221_TPM.txt: tab separated file with TPM values for each gene and sample; LN221_gene_raw_counts.txt: tab separated file with raw gene expression counts for each gene and sample
|
| |
|
| Submission date |
Jul 10, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Aida Moreno-Moral |
| Organization name |
Duke-NUS Medical School
|
| Street address |
8 College Road
|
| City |
Singapore |
| ZIP/Postal code |
169857 |
| Country |
Singapore |
| |
|
| Platform ID |
GPL21290 |
| Series (2) |
| GSE100725 |
In vivo generation of post-infarct human cardiac muscle by laminin-promoted cardiovascular progenitors |
| GSE101076 |
In vivo generation of post-infarct human cardiac muscle by laminin-promoted cardiovascular progenitors [LN-521 or LN-521+LN-221] |
|
| Relations |
| BioSample |
SAMN07339257 |
| SRA |
SRX2993596 |
